Research Associate

Min Pan

Research Associate

401 Terry Ave N
206-732-2102

Min Pan is a Research Associate and has joined this lab since 1997. She has made great contributions to the high-quality sequencing of the entire genomes of Halobacterium NRC-1 and Haloarcula Marismortui. She has involved in large-scale construction of gene knockouts in Halobacterium NRC-1 and has performed about 3,000 microarray slides for gene expression studies.

She specializes in designing and executing laboratory experiments, and very interested in mastering new technologies. She is good at solving specific technical problems and continues to provide high-quality data with efficient for the next analysis.

Recently she is working on Mycobacterium smegmatis and Mycobacterium tuberculosis using diverse techniques including Tn-Seq, ChIP-Seq, DNA-Seq, RNA-Seq, RIP-Seq, CRISPRi gene silencing, susceptibility to antibiotic assay, harvesting and culturing bone marrow derived macrophages from mouse, etc. She is also involved in working on GS cell lines of brain tumors and on E.coli for bacterial responses to antibiotic.

In addition, she is responsible for managing laboratory's day-to-day activities and organizing lab strains, chemicals, refrigerators and freezers, etc.

Publications

Dokic, Anja, Eliza Peterson, Mario L. Arrieta-Ortiz, Min Pan, Alessandro Di Maio, Nitin Baliga, and Apoorva Bhatt. “Mycobacterium Abscessus Biofilms Produce an Extracellular Matrix and Have a Distinct Mycolic Acid Profile.” Cell Surface (Amsterdam, Netherlands) 7 (December 2021): 100051. https://doi.org/10.1016/j.tcsw.2021.100051. Cite
Vega-Dominguez, Perla, Eliza Peterson, Min Pan, Alessandro Di Maio, Saumya Singh, Siva Umapathy, Deepak K. Saini, Nitin Baliga, and Apoorva Bhatt. “Biofilms of the Non-Tuberculous Mycobacterium Chelonae Form an Extracellular Matrix and Display Distinct Expression Patterns.” Cell Surface (Amsterdam, Netherlands) 6 (December 2020): 100043. https://doi.org/10.1016/j.tcsw.2020.100043. Cite Download
López García de Lomana, Adrián, Ulrike Kusebauch, Arjun V. Raman, Min Pan, Serdar Turkarslan, Alan P. R. Lorenzetti, Robert L. Moritz, and Nitin S. Baliga. “Selective Translation of Low Abundance and Upregulated Transcripts in Halobacterium Salinarum.” MSystems 5, no. 4 (July 28, 2020). https://doi.org/10.1128/mSystems.00329-20. Cite Download
Kaur, Amardeep, Phu T. Van, Courtney R. Busch, Courtney K. Robinson, Min Pan, Wyming Lee Pang, David J. Reiss, Jocelyne DiRuggiero, and Nitin S. Baliga. “Coordination of Frontline Defense Mechanisms under Severe Oxidative Stress.” Molecular Systems Biology 6 (July 2010): 393. https://doi.org/10.1038/msb.2010.50. Cite
Turkarslan, Serdar, David J. Reiss, Goodwin Gibbins, Wan Lin Su, Min Pan, J. Christopher Bare, Christopher L. Plaisier, and Nitin S. Baliga. “Niche Adaptation by Expansion and Reprogramming of General Transcription Factors.” Molecular Systems Biology 7 (2011): 554. https://doi.org/10.1038/msb.2011.87. Cite
Pang, W. Lee, Amardeep Kaur, Alexander V. Ratushny, Aleksandar Cvetkovic, Sunil Kumar, Min Pan, Adam P. Arkin, John D. Aitchison, Michael W. W. Adams, and Nitin S. Baliga. “Metallochaperones Regulate Intracellular Copper Levels.” PLoS Computational Biology 9, no. 1 (2013): e1002880. https://doi.org/10.1371/journal.pcbi.1002880. Cite
Plaisier, Christopher L., Min Pan, and Nitin S. Baliga. “A MiRNA-Regulatory Network Explains How Dysregulated MiRNAs Perturb Oncogenic Processes across Diverse Cancers.” Genome Research 22, no. 11 (November 2012): 2302–14. https://doi.org/10.1101/gr.133991.111. Cite
Edgar, Rachel S., Edward W. Green, Yuwei Zhao, Gerben van Ooijen, Maria Olmedo, Ximing Qin, Yao Xu, et al. “Peroxiredoxins Are Conserved Markers of Circadian Rhythms.” Nature 485, no. 7399 (May 24, 2012): 459–64. https://doi.org/10.1038/nature11088. Cite
Yoon, Sung Ho, David J. Reiss, J. Christopher Bare, Dan Tenenbaum, Min Pan, Joseph Slagel, Robert L. Moritz, et al. “Parallel Evolution of Transcriptome Architecture during Genome Reorganization.” Genome Research 21, no. 11 (November 2011): 1892–1904. https://doi.org/10.1101/gr.122218.111. Cite
Schmid, Amy K., Min Pan, Kriti Sharma, and Nitin S. Baliga. “Two Transcription Factors Are Necessary for Iron Homeostasis in a Salt-Dwelling Archaeon.” Nucleic Acids Research 39, no. 7 (April 2011): 2519–33. https://doi.org/10.1093/nar/gkq1211. Cite
Schmid, Amy K., David J. Reiss, Min Pan, Tie Koide, and Nitin S. Baliga. “A Single Transcription Factor Regulates Evolutionarily Diverse but Functionally Linked Metabolic Pathways in Response to Nutrient Availability.” Molecular Systems Biology 5 (2009): 282. https://doi.org/10.1038/msb.2009.40. Cite
Whitehead, Kenia, Min Pan, Ken-ichi Masumura, Richard Bonneau, and Nitin S. Baliga. “Diurnally Entrained Anticipatory Behavior in Archaea.” PloS One 4, no. 5 (2009): e5485. https://doi.org/10.1371/journal.pone.0005485. Cite
Kaur, Amardeep, Min Pan, Megan Meislin, Marc T. Facciotti, Raafat El-Gewely, and Nitin S. Baliga. “A Systems View of Haloarchaeal Strategies to Withstand Stress from Transition Metals.” Genome Research 16, no. 7 (July 2006): 841–54. https://doi.org/10.1101/gr.5189606. Cite
Facciotti, Marc T., Wyming L. Pang, Fang-yin Lo, Kenia Whitehead, Tie Koide, Ken-ichi Masumura, Min Pan, et al. “Large Scale Physiological Readjustment during Growth Enables Rapid, Comprehensive and Inexpensive Systems Analysis.” BMC Systems Biology 4 (2010): 64. https://doi.org/10.1186/1752-0509-4-64. Cite
Koide, Tie, David J. Reiss, J. Christopher Bare, Wyming Lee Pang, Marc T. Facciotti, Amy K. Schmid, Min Pan, et al. “Prevalence of Transcription Promoters within Archaeal Operons and Coding Sequences.” Molecular Systems Biology 5 (2009): 285. https://doi.org/10.1038/msb.2009.42. Cite
Bonneau, Richard, Marc T. Facciotti, David J. Reiss, Amy K. Schmid, Min Pan, Amardeep Kaur, Vesteinn Thorsson, et al. “A Predictive Model for Transcriptional Control of Physiology in a Free Living Cell.” Cell 131, no. 7 (December 28, 2007): 1354–65. https://doi.org/10.1016/j.cell.2007.10.053. Cite
Whitehead, Kenia, Adrienne Kish, Min Pan, Amardeep Kaur, David J. Reiss, Nichole King, Laura Hohmann, Jocelyne DiRuggiero, and Nitin S. Baliga. “An Integrated Systems Approach for Understanding Cellular Responses to Gamma Radiation.” Molecular Systems Biology 2 (2006): 47. https://doi.org/10.1038/msb4100091. Cite
Van, Phu T., Amy K. Schmid, Nichole L. King, Amardeep Kaur, Min Pan, Kenia Whitehead, Tie Koide, et al. “Halobacterium Salinarum NRC-1 PeptideAtlas: Toward Strategies for Targeted Proteomics and Improved Proteome Coverage.” Journal of Proteome Research 7, no. 9 (September 2008): 3755–64. https://doi.org/10.1021/pr800031f. Cite
Facciotti, Marc T., David J. Reiss, Min Pan, Amardeep Kaur, Madhavi Vuthoori, Richard Bonneau, Paul Shannon, et al. “General Transcription Factor Specified Global Gene Regulation in Archaea.” Proceedings of the National Academy of Sciences of the United States of America 104, no. 11 (March 13, 2007): 4630–35. https://doi.org/10.1073/pnas.0611663104. Cite
Baliga, Nitin S., Richard Bonneau, Marc T. Facciotti, Min Pan, Gustavo Glusman, Eric W. Deutsch, Paul Shannon, et al. “Genome Sequence of Haloarcula Marismortui: A Halophilic Archaeon from the Dead Sea.” Genome Research 14, no. 11 (November 2004): 2221–34. https://doi.org/10.1101/gr.2700304. Cite
Baliga, Nitin S., Sarah J. Bjork, Richard Bonneau, Min Pan, Chika Iloanusi, Molly C. H. Kottemann, Leroy Hood, and Jocelyne DiRuggiero. “Systems Level Insights into the Stress Response to UV Radiation in the Halophilic Archaeon Halobacterium NRC-1.” Genome Research 14, no. 6 (June 2004): 1025–35. https://doi.org/10.1101/gr.1993504. Cite
Goo, Young Ah, Eugene C. Yi, Nitin S. Baliga, Weiguo A. Tao, Min Pan, Ruedi Aebersold, David R. Goodlett, Leroy Hood, and Wailap V. Ng. “Proteomic Analysis of an Extreme Halophilic Archaeon, Halobacterium Sp. NRC-1.” Molecular & Cellular Proteomics : MCP 2, no. 8 (August 2003): 506–24. https://doi.org/10.1074/mcp.M300044-MCP200. Cite
Schmid, Amy K., David J. Reiss, Amardeep Kaur, Min Pan, Nichole King, Phu T. Van, Laura Hohmann, Daniel B. Martin, and Nitin S. Baliga. “The Anatomy of Microbial Cell State Transitions in Response to Oxygen.” Genome Research 17, no. 10 (October 2007): 1399–1413. https://doi.org/10.1101/gr.6728007. Cite
Baliga, Nitin S., Min Pan, Young Ah Goo, Eugene C. Yi, David R. Goodlett, Krassen Dimitrov, Paul Shannon, Ruedi Aebersold, Wailap Victor Ng, and Leroy Hood. “Coordinate Regulation of Energy Transduction Modules in Halobacterium Sp. Analyzed by a Global Systems Approach.” Proceedings of the National Academy of Sciences of the United States of America 99, no. 23 (November 12, 2002): 14913–18. https://doi.org/10.1073/pnas.192558999. Cite
Ng, W. V., S. P. Kennedy, G. G. Mahairas, B. Berquist, M. Pan, H. D. Shukla, S. R. Lasky, et al. “Genome Sequence of Halobacterium Species NRC-1.” Proceedings of the National Academy of Sciences of the United States of America 97, no. 22 (October 24, 2000): 12176–81. https://doi.org/10.1073/pnas.190337797. Cite
Goo, Young Ah, Jared Roach, Gustavo Glusman, Nitin S. Baliga, Kerry Deutsch, Min Pan, Sean Kennedy, Shiladitya DasSarma, Wailap Victor Ng, and Leroy Hood. “Low-Pass Sequencing for Microbial Comparative Genomics.” BMC Genomics 5, no. 1 (January 12, 2004): 3. https://doi.org/10.1186/1471-2164-5-3. Cite
Peterson, Eliza JR, Rebeca Bailo, Alissa C. Rothchild, Mario L. Arrieta‐Ortiz, Amardeep Kaur, Min Pan, Dat Mai, et al. “Path‐seq Identifies an Essential Mycolate Remodeling Program for Mycobacterial Host Adaptation.” Molecular Systems Biology 15, no. 3 (March 1, 2019): e8584. https://doi.org/10.15252/msb.20188584. Cite Download
Abidi, Abrar A., Eliza J. R. Peterson, Mario L. Arrieta-Ortiz, Boris Aguilar, James T. Yurkovich, Amardeep Kaur, Min Pan, Vivek Srinivas, Ilya Shmulevich, and Nitin S. Baliga. “Intricate Genetic Programs Controlling Dormancy in Mycobacterium Tuberculosis.” BioRxiv, July 22, 2019, 709378. https://doi.org/10.1101/709378. Cite
Peterson, Eliza J. R., Abrar A. Abidi, Mario L. Arrieta-Ortiz, Boris Aguilar, James T. Yurkovich, Amardeep Kaur, Min Pan, Vivek Srinivas, Ilya Shmulevich, and Nitin S. Baliga. “Intricate Genetic Programs Controlling Dormancy in Mycobacterium Tuberculosis.” Cell Reports 31, no. 4 (April 28, 2020): 107577. https://doi.org/10.1016/j.celrep.2020.107577. Cite
Plaisier, Christopher L., Fang-Yin Lo, Justin Ashworth, Aaron N. Brooks, Karlyn D. Beer, Amardeep Kaur, Min Pan, David J. Reiss, Marc T. Facciotti, and Nitin S. Baliga. “Evolution of Context Dependent Regulation by Expansion of Feast/Famine Regulatory Proteins.” BMC Systems Biology 8 (2014): 122. https://doi.org/10.1186/s12918-014-0122-2. Cite
Brooks, Aaron N., David J. Reiss, Antoine Allard, Wei-Ju Wu, Diego M. Salvanha, Christopher L. Plaisier, Sriram Chandrasekaran, Min Pan, Amardeep Kaur, and Nitin S. Baliga. “A System-Level Model for the Microbial Regulatory Genome.” Molecular Systems Biology 10 (2014): 740. Cite
Wurtmann, Elisabeth J., Alexander V. Ratushny, Min Pan, Karlyn D. Beer, John D. Aitchison, and Nitin S. Baliga. “An Evolutionarily Conserved RNase-Based Mechanism for Repression of Transcriptional Positive Autoregulation.” Molecular Microbiology 92, no. 2 (April 2014): 369–82. https://doi.org/10.1111/mmi.12564. Cite
Costa, Kyle C., Sung Ho Yoon, Min Pan, June A. Burn, Nitin S. Baliga, and John A. Leigh. “Effects of H2 and Formate on Growth Yield and Regulation of Methanogenesis in Methanococcus Maripaludis.” Journal of Bacteriology 195, no. 7 (April 2013): 1456–62. https://doi.org/10.1128/JB.02141-12. Cite
Yoon, Sung Ho, Serdar Turkarslan, David J. Reiss, Min Pan, June A. Burn, Kyle C. Costa, Thomas J. Lie, et al. “A Systems Level Predictive Model for Global Gene Regulation of Methanogenesis in  a Hydrogenotrophic Methanogen.” Genome Research 23, no. 11 (November 2013): 1839–51. https://doi.org/10.1101/gr.153916.112. Cite